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NERC-CEH
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plankton_ml
A project for image processing and analysis pipelines for plankton sampling
GNU General Public License v3.0
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Workflow docs - diagram and draft presentation
#54
metazool
opened
15 hours ago
0
Fastapi model serving
#53
metazool
opened
3 days ago
0
FastAPI model serving
#52
metazool
opened
3 days ago
1
Tweaks and fixes for the image upload pipeline
#51
metazool
closed
3 days ago
0
Object store docs
#50
metazool
closed
5 days ago
0
Luigi pipeline related changes
#49
metazool
closed
5 days ago
0
Flow cytometer data handling
#48
metazool
closed
5 days ago
0
Deployment of image processing, ideally somewhere maintained by others!
#47
metazool
opened
2 weeks ago
3
Workflow docs - addition of diagrams and one test fix
#46
metazool
closed
2 weeks ago
0
New plankton model available from Turing work
#45
metazool
opened
2 weeks ago
3
Alternative vector store to ChromaDB?
#44
metazool
opened
2 weeks ago
1
Pipeline issues (dependencies in tests, doc generation)
#43
metazool
closed
2 weeks ago
0
Documentation-only, focus on use of the object store
#42
metazool
closed
2 weeks ago
0
Special handling for flow cytometer images
#41
metazool
closed
1 month ago
0
Add the Luigi pipeline for image decollaging
#40
metazool
closed
1 month ago
0
Handling for flow cytometer data format
#39
metazool
closed
1 month ago
0
Luigi pipeline integration into this project
#38
metazool
closed
1 month ago
0
BioCLIP WIP notebook
#37
metazool
closed
1 month ago
1
Options for setting up DVC for data / pipelines
#36
metazool
closed
1 month ago
0
Add support for DVC, and switch out s3fs for boto3
#35
metazool
closed
2 months ago
0
Shift from s3fs to boto3 for consistency
#34
metazool
closed
2 months ago
1
Deploy and improve the streamlit demo app
#33
metazool
opened
2 months ago
2
Packaged way adding a detritus classifier to image processing
#32
metazool
opened
2 months ago
3
Simple automation for the image decollage process
#31
metazool
closed
1 month ago
1
Object store API for the plankton store in JASMIN
#30
metazool
closed
1 month ago
2
Set things straight after the change to src layout
#29
metazool
closed
2 months ago
4
Cleanup after the merge conflicts
#28
metazool
closed
2 months ago
2
Revert "Add the "decollage" process for raw microscope output to the package"
#27
jmarshrossney
closed
2 months ago
0
Single-source pip and conda dependencies
#26
jmarshrossney
closed
2 months ago
5
Confusion about the use of dask/xarray in this project
#25
jmarshrossney
closed
1 month ago
5
Drop scivision
#24
jmarshrossney
closed
2 months ago
1
Layout and minimal changes
#23
jmarshrossney
closed
2 months ago
2
Add the "decollage" process for raw microscope output to the package
#22
metazool
closed
3 months ago
1
Pipeline-runnable code to "decollage" the combined FlowCam images
#21
metazool
closed
3 months ago
3
Automating file transfer off the FlowCam
#20
metazool
opened
3 months ago
4
Clustering visualisation - notebook and basic streamlit demo
#19
metazool
closed
3 months ago
3
Minimum change to reflect new bucket locations
#18
metazool
closed
3 months ago
4
FlowCam visit - documentation
#17
metazool
closed
3 months ago
1
Modest proposal for running a model on the FlowCam directly
#16
metazool
opened
4 months ago
0
Markdown representations of Jupyter notebooks
#15
jmarshrossney
closed
3 months ago
4
Lockfiles
#14
jmarshrossney
opened
4 months ago
8
Modify environment.yml
#13
jmarshrossney
closed
3 months ago
2
Reflect layout changes to the object store
#12
metazool
closed
3 months ago
2
Diagram view of first stage pipeline (from sampling instrument to shared storage)
#11
metazool
closed
3 months ago
1
Extract and store embeddings from BioCLIP
#10
metazool
opened
4 months ago
3
Higher-level system view walkthrough diagrams
#9
metazool
opened
4 months ago
1
Demo / lightning talk for plankton image data flow
#8
metazool
opened
4 months ago
3
Quick attempt at model interpretation
#7
metazool
closed
2 months ago
5
Apply model explainability tools to the images output by similarity search
#6
metazool
closed
2 months ago
3
Proof of concept of similarity search with the scivision model
#5
metazool
closed
4 months ago
6
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